Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F2 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,425,778 |
T→C |
E215G (GAA→GGA) |
folC ← |
bifunctional tetrahydrofolate synthase/dihydrofolate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,425,778 | 0 | T | C | 100.0%
| 65.8
/ NA
| 19 | E215G (GAA→GGA) | folC | bifunctional tetrahydrofolate synthase/dihydrofolate synthase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (12/7); total (12/7) |
GTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCG > NZ_CP009273/2425696‑2425864
|
gTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTgcgc < 1:205040/90‑1 (MQ=255)
tGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGcc < 2:520057/90‑1 (MQ=255)
tGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGcc < 2:180529/90‑1 (MQ=255)
cATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACAt > 1:187310/1‑90 (MQ=255)
cccAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAg < 2:712888/90‑1 (MQ=255)
gTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAgg < 1:381838/90‑1 (MQ=255)
gTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGc > 1:594058/1‑90 (MQ=255)
aTAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAAt > 1:489587/1‑63 (MQ=255)
aTAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAAt < 2:489587/63‑1 (MQ=255)
aCGCCCCGACGTTGTAACAGTGCACCTTTTCCCTgcgc > 1:257294/1‑38 (MQ=38)
aCGCCCCGACGTTGTAACAGTGCACCTTTTCCCTgcgc < 2:257294/38‑1 (MQ=38)
aCGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGtttt > 2:774616/1‑90 (MQ=255)
aCGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGtttt > 1:611293/1‑90 (MQ=255)
cGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTg > 2:125571/1‑90 (MQ=255)
gTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTg > 1:503668/1‑90 (MQ=255)
gCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCt > 2:353205/1‑90 (MQ=255)
gCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCt > 2:707958/1‑90 (MQ=255)
gCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCt > 1:283091/1‑90 (MQ=255)
aCCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCttt > 2:658470/1‑90 (MQ=255)
tttcCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTcg < 1:707958/90‑1 (MQ=255)
|
GTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCG > NZ_CP009273/2425696‑2425864
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ATTTTCCAGCGTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACT > NZ_CP009273/2425681‑2425875
|
catacgagataatcggacgtctcgtgggctcggagatgtgtataagagacaGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCC < SRR3722072.299372/49‑1 (MQ=60)
ATTTTCCAGCGTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCC < SRR3722072.856329/100‑1 (MQ=60)
GTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACAT > SRR3722072.190564/1‑100 (MQ=60)
GTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCA < SRR3722072.208555/100‑1 (MQ=60)
GTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGC < SRR3722072.388668/100‑1 (MQ=60)
GTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGC > SRR3722072.604658/1‑100 (MQ=60)
CGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCctgtctcttatacacat > SRR3722072.498436/1‑83 (MQ=60)
GTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCActgtctcttatacacatctccgagcccacgagacgtccgatt > SRR3722072.261656/1‑58 (MQ=60)
GTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTT > SRR3722072.622191/1‑100 (MQ=60)
CGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTG > SRR3722072.512758/1‑100 (MQ=60)
TTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCctgtctcttatacacatctccgagcccacgagacgtccgattatctcgtat > SRR3722072.719504/1‑49 (MQ=60)
TTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCT > SRR3722072.287939/1‑100 (MQ=60)
TTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATAC < SRR3722072.720580/100‑1 (MQ=60)
TTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACT < SRR3722072.670224/100‑1 (MQ=60)
|
ATTTTCCAGCGTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACT > NZ_CP009273/2425681‑2425875
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
